Back to Multiple platform build/check report for BioC 3.9
ABCDE[F]GHIJKLMNOPQRSTUVWXYZ

INSTALL report for flagme on tokay2

This page was generated on 2019-10-16 12:22:16 -0400 (Wed, 16 Oct 2019).

Package 553/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flagme 1.40.0
Mark Robinson , Riccardo Romoli
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/flagme
Branch: RELEASE_3_9
Last Commit: 2034f83
Last Changed Date: 2019-05-02 11:53:11 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: flagme
Version: 1.40.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/flagme_1.40.0.tar.gz && rm -rf flagme.buildbin-libdir && mkdir flagme.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flagme.buildbin-libdir flagme_1.40.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL flagme_1.40.0.zip && rm flagme_1.40.0.tar.gz flagme_1.40.0.zip
StartedAt: 2019-10-15 20:40:51 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 20:41:52 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 60.9 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/flagme_1.40.0.tar.gz && rm -rf flagme.buildbin-libdir && mkdir flagme.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flagme.buildbin-libdir flagme_1.40.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL flagme_1.40.0.zip && rm flagme_1.40.0.tar.gz flagme_1.40.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  402k  100  402k    0     0  5687k      0 --:--:-- --:--:-- --:--:-- 6288k

install for i386

* installing *source* package 'flagme' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c dp.c -o dp.o
dp.c: In function 'dp':
dp.c:218:21: warning: 'cur_min' may be used uninitialized in this function [-Wmaybe-uninitialized]
   double gap=*gap_, cur_min, a, b, c;
                     ^
dp.c:217:30: warning: 'tb' may be used uninitialized in this function [-Wmaybe-uninitialized]
   int i,j, nr=*nr_, nc=*nc_, tb, count=0, done=0;
                              ^
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c init.c -o init.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c pearson.c -o pearson.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o flagme.dll tmp.def dp.o init.o pearson.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/flagme.buildbin-libdir/00LOCK-flagme/00new/flagme/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'flagme'
    finding HTML links ... done
    addAMDISPeaks                           html  
    addChromaTOFPeaks                       html  
    addXCMSPeaks                            html  
    finding level-2 HTML links ... done

    betweenAlignment                        html  
    calcTimeDiffs                           html  
    clusterAlignment                        html  
    compress                                html  
    corPrt                                  html  
    dp                                      html  
    dynRT                                   html  
    eitherMatrix                            html  
    exportSpectra                           html  
    gatherInfo                              html  
    imputePeaks                             html  
    multipleAlignment                       html  
    ndpRT                                   html  
    normDotProduct                          html  
    parseChromaTOF                          html  
    parseELU                                html  
    peaksAlignment                          html  
    peaksDataset                            html  
    plot                                    html  
    plotImage                               html  
    plotMultipleSpectra                     html  
    plotSpectra                             html  
    progressiveAlignment                    html  
    retFatMatrix                            html  
    rmaFitUnit                              html  
** building package indices
** installing vignettes
   'flagme.Rnw' using 'UTF-8' 
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'flagme' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c dp.c -o dp.o
dp.c: In function 'dp':
dp.c:263:26: warning: 'cur_min' may be used uninitialized in this function [-Wmaybe-uninitialized]
    D[(i+1)+(j+1)*(nr+1)] = cur_min;
                          ^
dp.c:264:28: warning: 'tb' may be used uninitialized in this function [-Wmaybe-uninitialized]
    phi[(i+1)+(j+1)*(nr+1)] = tb;
                            ^
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c init.c -o init.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c pearson.c -o pearson.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o flagme.dll tmp.def dp.o init.o pearson.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/flagme.buildbin-libdir/flagme/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flagme' as flagme_1.40.0.zip
* DONE (flagme)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'flagme' successfully unpacked and MD5 sums checked